Updated on 2025/01/31

写真a

 
Nishimura Kazusa
 
Organization
Faculty of Environmental, Life, Natural Science and Technology Assistant Professor
Position
Assistant Professor
Profile

作物の栽培と遺伝解析を行っております。

 

パンコムギの祖先種の四倍体コムギを材料に、コムギ育種に有用な遺伝子の同定、単離を進めております。

また、イネ、ダイズを材料に、遺伝子型情報を用いた作物発育予測モデルの構築も行っています。

 

2023年4月からは岡山大学でオオムギの育種上有用な遺伝子の単離を進めております。

 

最近は、NGSライブラリー構築法の開発・改良を行なっており

共同研究者の方とともに、様々な作物の遺伝解析を進めております。

 

MIG-seq(Suyama et al. 2022, Nishimura et al. 2022)、

dpMIG-seq(Nishimura et al. 2024)を用いた共同研究、技術移転のご相談は

 

knishimura[a]okayama-u.ac.jpまでメールをください([a]を@に変えて下さい)。

 

品質がそれほど良くないDNAからでもddRAD-seqのような多型検出が可能です。

高価なKITなどを使う必要がないので、DNA抽出のコストを抑えることができます。

親の遺伝的な距離にも依存しますが、QTL解析に十分な多型を検出できます。

 

 

 

External link

Degree

  • 博士(農学) ( 2022.11   京都大学 )

Research Interests

  • Tetraploid Wheat

  • 合成六倍体コムギ

  • MIG-seq

  • GBS

  • カンキツ

  • wheat

  • 作物発育モデル

  • Breeding Science

  • QTL analysis

  • 品種識別法

  • オオムギ

Research Areas

  • Environmental Science/Agriculture Science / Crop production science

  • Environmental Science/Agriculture Science / Science in plant genetics and breeding  / Breeding Science

  • Environmental Science/Agriculture Science / Science in plant genetics and breeding

 

Papers

  • Anekomochi glutinous rice provides low postprandial glycemic response by enhanced insulin action via GLP-1 release and vagal afferents activation Reviewed

    Kento Ohbayashi, Yudai Sugiyama, Taichi Nohmi, Kazusa Nishimura, Tetsuya Nakazaki, Yo-Ichiro Sato, Takehiro Masumura, Yusaku Iwasaki

    The Journal of Physiological Sciences   74   47   2024.9

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    Language：English  

    DOI： 10.1186/s12576-024-00940-5

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  • A low-cost dpMIG-seq method for elucidating complex inheritance in polysomic crops: A case study in tetraploid blueberry Reviewed

    Kyoka Nagasaka, Kazusa Nishimura, Ko Motoki, Keigo Yamagata, Soichiro Nishiyama, Hisayo Yamane, Ryutaro Tao, Ryohei Nakano, Tetsuya Nakazaki

    Horticulture Research   uhae248   2024.9

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    Language：English   Publishing type：Research paper (scientific journal)   Publisher：Oxford University Press (OUP)  

    Abstract

    Next-generation sequencing (NGS) library construction often requires high-quality DNA extraction, precise adjustment of DNA concentration, and restriction enzyme digestion to reduce genome complexity, which results in increased time and cost in sample preparation and processing. To address these challenges, a PCR-based method for rapid NGS library preparation, named dpMIG-seq, has been developed and proven effective for high-throughput genotyping. However, the application of dpMIG-seq has been limited to diploid and polyploid species with disomic inheritance. In this study, we obtained genome-wide single nucleotide polymorphism (SNP) markers for tetraploid blueberry to evaluate genotyping and downstream analysis outcomes. Comparison of genotyping qualities inferred across samples with different DNA concentrations and multiple bioinformatics approaches revealed high accuracy and reproducibility of dpMIG-seq-based genotyping, with Pearson’s correlation coefficients between replicates in the range of 0.91 to 0.98. Furthermore, we demonstrated that dpMIG-seq enables accurate genotyping of samples with low DNA concentrations. Subsequently, we applied dpMIG-seq to a tetraploid F1 population to examine the inheritance probability of parental alleles. Pairing configuration analysis supported the random meiotic pairing of homologous chromosomes on a genome-wide level. On the other hand, preferential pairing was observed on chr-11, suggesting that there may be an exception to the random pairing. Genotypic data suggested quadrivalent formation within the population, although the frequency of quadrivalent formation varied by chromosome and cultivar. Collectively, the results confirmed applicability of dpMIG-seq for allele dosage genotyping and are expected to catalyze the adoption of this cost-effective and rapid genotyping technology in polyploid studies.

    DOI： 10.1093/hr/uhae248

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  • Chromosome-level genome assemblies for two quinoa inbred lines from northern and southern highlands of Altiplano where quinoa originated Reviewed

    Yasufumi Kobayashi, Hideki Hirakawa, Kenta Shirasawa, Kazusa Nishimura, Kenichiro Fujii, Rolando Oros, Giovanna R. Almanza, Yukari Nagatoshi, Yasuo Yasui, Yasunari Fujita

    Frontiers in Plant Science   15   2024.8

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    Language：English   Publishing type：Research paper (scientific journal)   Publisher：Frontiers Media SA  

    Quinoa is emerging as a key seed crop for global food security due to its ability to grow in marginal environments and its excellent nutritional properties. Because quinoa is partially allogamous, we have developed quinoa inbred lines necessary for molecular genetic analysis. Our comprehensive genomic analysis showed that the quinoa inbred lines fall into three genetic subpopulations: northern highland, southern highland, and lowland. Lowland and highland quinoa are the same species, but have very different genotypes and phenotypes. Lowland quinoa has relatively small grains and a darker grain color, and is widely tested and grown around the world. In contrast, the white, large-grained highland quinoa is grown in the Andean highlands, including the region where quinoa originated, and is exported worldwide as high-quality quinoa. Recently, we have shown that viral vectors can be used to regulate endogenous genes in quinoa, paving the way for functional genomics to reveal the diversity of quinoa. However, although a high-quality assembly has recently been reported for a lowland quinoa line, genomic resources of the quality required for functional genomics are not available for highland quinoa lines. Here we present high-quality chromosome-level genome assemblies for two highland inbred quinoa lines, J075 representing the northern highland line and J100 representing the southern highland line, using PacBio HiFi sequencing and dpMIG-seq. In addition, we demonstrate the importance of verifying and correcting reference-based scaffold assembly with other approaches such as linkage maps. The assembled genome sizes of J075 and J100 are 1.29 and 1.32 Gb, with contigs N50 of 66.3 and 12.6 Mb, and scaffold N50 of 71.2 and 70.6 Mb, respectively, comprising 18 pseudochromosomes. The repetitive sequences of J075 and J100 represent 72.6% and 71.5% of the genome, the majority of which are long terminal repeats, representing 44.0% and 42.7% of the genome, respectively. The de novo assembled genomes of J075 and J100 were predicted to contain 65,303 and 64,945 protein-coding genes, respectively. The high quality genomes of these highland quinoa lines will facilitate quinoa functional genomics research on quinoa and contribute to the identification of key genes involved in environmental adaptation and quinoa domestication.

    DOI： 10.3389/fpls.2024.1434388

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  • Workflow for development of CAPS markers with one type of restriction enzyme to identify citrus cultivars Reviewed

    Kazusa Nishimura, Maho Okuma, Junko Kaneyoshi, Atsu Yamasaki, Kyoka Nagasaka, Kazuki Murata, Yuki Monden, Kenji Kato, Hidetaka Nishida, Tetsuya Nakazaki, Ryohei Nakano

    Tree Genetics & Genomes   20 ( 5 )   2024.8

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    Authorship：Lead author,　Corresponding author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Springer Science and Business Media LLC  

    Abstract

    Given the ease of propagating fruit tree species through cloning, the economic viability of their breeding programs hinges on protecting breeders' rights. This necessitates the development of highly accurate DNA markers for cultivar identification. Here, we present a methodology for the rapid design of cleaved amplified polymorphic sequence (CAPS) markers to discriminate newly bred Japanese citrus cultivars from genetically related cultivars. We first compared the performance of ddRAD-seq and MIG-seq in citrus germplasm. The ddRAD-seq libraries generated using EcoRI and HindIII restriction enzymes yielded the highest number of polymorphisms. Subsequently, ddRAD-seq with EcoRI and HindIII was employed to analyze 29 citrus cultivars and thus identify 331,801 genome-wide polymorphisms. A semi-automated bioinformatics pipeline was then utilized to identify candidate CAPS markers, resulting in the discovery of 14,072 potential markers. Of these candidates, 52 were chosen for validation based on their recognition by the PstI restriction enzyme. This evaluation resulted in the development of 11 highly discriminative CAPS markers. Remarkably, a combination of only six such markers was sufficient to differentiate newly bred cultivars from their genetically related parents. The single restriction enzyme employed for these markers facilitates straightforward multiplexing. Finally, a combination of one multiplex marker testing two loci and four singleplex markers was successfully selected that completely discriminated the cultivars other than the bud sports used in this study. The pipeline established here extends beyond citrus and has the potential to simplify marker development and cultivar protection in various plant species.

    DOI： 10.1007/s11295-024-01661-x

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    Other Link： https://link.springer.com/article/10.1007/s11295-024-01661-x/fulltext.html

  • Degenerate oligonucleotide primer MIG‐seq: an effective PCR‐based method for high‐throughput genotyping Reviewed

    Kazusa Nishimura, Hiroyuki Kokaji, Ko Motoki, Akira Yamazaki, Kyoka Nagasaka, Takashi Mori, Rihito Takisawa, Yasuo Yasui, Takashi Kawai, Koichiro Ushijima, Masanori Yamasaki, Hiroki Saito, Ryohei Nakano, Tetsuya Nakazaki

    The Plant Journal   2024.3

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    Authorship：Lead author,　Corresponding author   Publishing type：Research paper (scientific journal)   Publisher：Wiley  

    SUMMARY

    Next‐generation sequencing (NGS) library construction often involves using restriction enzymes to decrease genome complexity, enabling versatile polymorphism detection in plants. However, plant leaves frequently contain impurities, such as polyphenols, necessitating DNA purification before enzymatic reactions. To overcome this problem, we developed a PCR‐based method for expeditious NGS library preparation, offering flexibility in number of detected polymorphisms. By substituting a segment of the simple sequence repeat sequence in the MIG‐seq primer set (MIG‐seq being a PCR method enabling library construction with low‐quality DNA) with degenerate oligonucleotides, we introduced variability in detectable polymorphisms across various crops. This innovation, named degenerate oligonucleotide primer MIG‐seq (dpMIG‐seq), enabled a streamlined protocol for constructing dpMIG‐seq libraries from unpurified DNA, which was implemented stably in several crop species, including fruit trees. Furthermore, dpMIG‐seq facilitated efficient lineage selection in wheat and enabled linkage map construction and quantitative trait loci analysis in tomato, rice, and soybean without necessitating DNA concentration adjustments. These findings underscore the potential of the dpMIG‐seq protocol for advancing genetic analyses across diverse plant species.

    DOI： 10.1111/tpj.16708

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  • Introduction of a diverse genetic background of Pyrus into Malus through intergeneric hybridization. Reviewed

    Takuya Morimoto, Ryuya Narazaki, Hiroaki Okabe, Lumin Zhang, Kazusa Nishimura, Akihiro Itai

    Molecular Genetics and Genomics   299   21   2024.3

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    Language：English   Publishing type：Research paper (scientific journal)  

    DOI： 10.1007/s00438-024-02131-8

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  • Pollen Dispersion is a Key Factor for Autonomous Fruit Set Under High Temperatures in the Capsicum annuum ‘Takanotsume’ Reviewed

    Akira Yamazaki, Ao Takezawa, Kazusa Nishimura, Ko Motoki, Kyoka Nagasaka, Ryohei Nakano, Tetsuya Nakazaki, Munetaka Hosokawa

    The Horticulture Journal   QH-094   2023.10

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    Publishing type：Research paper (scientific journal)   Publisher：Japanese Society for Horticultural Science  

    DOI： 10.2503/hortj.QH-094

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  • Genome sequencing reveals the genetic architecture of heterostyly and domestication history of common buckwheat. Reviewed International journal

    Jeffrey A Fawcett, Ryoma Takeshima, Shinji Kikuchi, Euki Yazaki, Tomoyuki Katsube-Tanaka, Yumei Dong, Meifang Li, Harriet V Hunt, Martin K Jones, Diane L Lister, Takanori Ohsako, Eri Ogiso-Tanaka, Kenichiro Fujii, Takashi Hara, Katsuhiro Matsui, Nobuyuki Mizuno, Kazusa Nishimura, Tetsuya Nakazaki, Hiroki Saito, Naoko Takeuchi, Mariko Ueno, Daiki Matsumoto, Miyu Norizuki, Kenta Shirasawa, Chengyun Li, Hideki Hirakawa, Tatsuya Ota, Yasuo Yasui

    Nature plants   2023.8

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    Language：English   Publishing type：Research paper (scientific journal)  

    Common buckwheat, Fagopyrum esculentum, is an orphan crop domesticated in southwest China that exhibits heterostylous self-incompatibility. Here we present chromosome-scale assemblies of a self-compatible F. esculentum accession and a self-compatible wild relative, Fagopyrum homotropicum, together with the resequencing of 104 wild and cultivated F. esculentum accessions. Using these genomic data, we report the roles of transposable elements and whole-genome duplications in the evolution of Fagopyrum. In addition, we show that (1) the breakdown of heterostyly occurs through the disruption of a hemizygous gene jointly regulating the style length and female compatibility and (2) southeast Tibet was involved in common buckwheat domestication. Moreover, we obtained mutants conferring the waxy phenotype for the first time in buckwheat. These findings demonstrate the utility of our F. esculentum assembly as a reference genome and promise to accelerate buckwheat research and breeding.

    DOI： 10.1038/s41477-023-01474-1

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  • A simple method for measuring pollen germination rate using machine learning Reviewed

    Akira Yamazaki, Ao Takezawa, Kyoka Nagasaka, Ko Motoki, Kazusa Nishimura, Ryohei Nakano, Tetsuya Nakazaki

    Plant Reproduction   36 ( 4 )   355 - 364   2023.6

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    Publishing type：Research paper (scientific journal)   Publisher：Springer Science and Business Media LLC  

    DOI： 10.1007/s00497-023-00472-9

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    Other Link： https://link.springer.com/article/10.1007/s00497-023-00472-9/fulltext.html

  • Indicator Candidate Traits for Autonomous Fruit Set Ability Under High Temperatures in Capsicum Reviewed

    Akira Yamazaki, Ao Takezawa, Ryohei Nakano, Kazusa Nishimura, Ko Motoki, Munetaka Hosokawa, Tetsuya Nakazaki

    Journal of Horticultural Research   30 ( 2 )   105 - 116   2023.1

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    Publishing type：Research paper (scientific journal)   Publisher：Walter de Gruyter GmbH  

    Abstract

    “Autonomous fruit set” refers to self-pollination and fruit set without pollen vectors such as vibration or insects. Autonomous fruit set under high-temperature stress is an important breeding goal as climate change can reduce fruit yields in Capsicum. We screened Capsicum cultivars for autonomous fruit set ability in a greenhouse environment and investigated pollen germination, viability, pollen grains number, chlorophyll fluorescence (Fv/Fm), style length, anther cone length, and anthesis stage under high temperatures in order to identify indicator traits for screening more genotypes with autonomous fruit set ability. The fruit set of the ‘Takanotsume’ (57.7 ± 20.6%) and ‘Goshiki Kyokko’ (52.2 ± 14.2%) cultivars (both C. annuum) were higher than those of other cultivars. Correlation analysis showed that pollen germination had the highest correlation with fruit set in C. annuum cultivars (r = 0.63). These results indicate that ‘Takanotsume’ and ‘Goshiki Kyokko’ are useful cultivars for novel breeding programs focusing on autonomous fruit sets under high temperatures, and pollen germination in C. annuum was a convincing candidate for an indicator trait of autonomous fruit set ability under high temperatures.

    DOI： 10.2478/johr-2022-0017

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  • Analysis of mechanism regulating high total soluble solid content in the parthenocarpic tomato fruit induced by pat-k gene Reviewed

    Chiaki Fukudome, Rihito Takisawa, Ryohei Nakano, Miyako Kusano, Makoto Kobayashi, Ko Motoki, Kazusa Nishimura, Tetsuya Nakazaki

    Scientia Horticulturae   301   111070 - 111070   2022.7

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    Publishing type：Research paper (scientific journal)   Publisher：Elsevier BV  

    DOI： 10.1016/j.scienta.2022.111070

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  • MIG-seq is an effective method for high-throughput genotyping in wheat (Triticum spp.) Reviewed International journal

    Kazusa Nishimura, Ko Motoki, Akira Yamazaki, Rihito Takisawa, Yasuo Yasui, Takashi Kawai, Koichiro Ushijima, Ryohei Nakano, Tetsuya Nakazaki

    DNA Research   29 ( 2 )   2022.4

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    Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)   Publisher：Oxford University Press (OUP)  

    Abstract

    MIG-seq (Multiplexed inter-simple sequence repeats genotyping by sequencing) has been developed as a low cost genotyping technology, although the number of polymorphisms obtained is assumed to be minimal, resulting in the low application of this technique to analyses of agricultural plants. We applied MIG-seq to 12 plant species that include various crops and investigated the relationship between genome size and the number of bases that can be stably sequenced. The genome size and the number of loci, which can be sequenced by MIG-seq, are positively correlated. This is due to the linkage between genome size and the number of simple sequence repeats (SSRs) through the genome. The applicability of MIG-seq to population structure analysis, linkage mapping, and quantitative trait loci (QTL) analysis in wheat, which has a relatively large genome, was further evaluated. The results of population structure analysis for tetraploid wheat showed the differences among collection sites and subspecies, which agreed with previous findings. Additionally, in wheat biparental mapping populations, over 3,000 SNPs/indels with low deficiency were detected using MIG-seq, and the QTL analysis was able to detect recognized flowering-related genes. These results revealed the effectiveness of MIG-seq for genomic analysis of agricultural plants with large genomes, including wheat.

    DOI： 10.1093/dnares/dsac011

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    Other Link： https://academic.oup.com/dnaresearch/article-pdf/29/2/dsac011/43439343/dsac011.pdf

  • Geographical distribution and adaptive variation of VRN-A3 alleles in worldwide polyploid wheat (Triticum spp.) species collection Reviewed International journal

    Nishimura, K, H. Handa, N. Mori, K. Kawaura, A. Kitajima, T, Nakazaki

    Planta   256 ( 6 )   132 - 132   2021.5

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    Authorship：Lead author   Language：English   Publishing type：Research paper (scientific journal)  

    MAIN CONCLUSION: The distribution of early flowering alleles of VRN-A3 was found to be biased to low latitudes, and these alleles may contribute to environmental adaptability to low latitudes in cultivated emmer wheat. In wheat (Triticum spp.), the flowering time is an important trait for successful seed production and yield by adapting to the regional environment. An early flowering allele of VRN-A3 with 7- and 25-bp insertions in the promoter region (Vrn-A3a-h1) has recently been reported from the analysis of an emmer wheat (Triticum turgidum L. ssp. dicoccum) accession, TN26. This early flowering allele of VRN-A3 might be associated with the regional adaptation of wheat. In this study, we elucidated its geographic distribution to assess the importance of the early flowering allele of VRN-A3 in worldwide wheat collection. From sequence analysis, we identified six VRN-A3 alleles with the 7- and 25-bp insertions, namely, Vrn-A3a-h2, Vrn-A3a-h3, Vrn-A3a-h4, Vrn-A3a-h5, Vrn-A3a-h6, and Vrn-A3c-h2 from wild emmer wheat, while we identified two VRN-A3 alleles with these insertions, Vrn-A3a-h2 and Vrn-A3c-h1 from cultivated tetraploid and hexaploid wheat species in addition to Vrn-A3a-h1. Among VRN-A3 alleles distributed in cultivated wheat, we found that Vrn-A3a-h2 promoted early heading, whereas Vrn-A3c-h1 did not affect heading time. Our analysis showed that the distribution of early flowering alleles of VRN-A3 dominated in cultivated emmer wheat in Ethiopia and India, which actually showed an early flowering phenotype. This implied that the early flowering alleles of VRN-A3 contribute to adaptability to a low-latitude environment in cultivated emmer wheat. We could not find durum (T. turgidum L. ssp. durum) and bread wheat (T. aestivum L. ssp. aestivum) accessions with these early flowering alleles. Our findings indicated that Vrn-A3a-h1 and Vrn-A3a-h2 were useful for breeding of early flowering cultivars in durum and bread wheat varieties.

    DOI： 10.1007/s00425-021-03646-9

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  • De Novo Genome Assembly of the Japanese Wheat Cultivar Norin 61 Highlights Functional Variation in Flowering Time and Fusarium-Resistant Genes in East Asian Genotypes. Reviewed

    Kentaro K Shimizu, Dario Copetti, Moeko Okada, Thomas Wicker, Toshiaki Tameshige, Masaomi Hatakeyama, Rie Shimizu-Inatsugi, Catharine Aquino, Kazusa Nishimura, Fuminori Kobayashi, Kazuki Murata, Tony Kuo, Emily Delorean, Jesse Poland, Georg Haberer, Manuel Spannagl, Klaus F X Mayer, Juan Gutierrez-Gonzalez, Gary J Muehlbauer, Cecile Monat, Axel Himmelbach, Sudharsan Padmarasu, Martin Mascher, Sean Walkowiak, Tetsuya Nakazaki, Tomohiro Ban, Kanako Kawaura, Hiroyuki Tsuji, Curtis Pozniak, Nils Stein, Jun Sese, Shuhei Nasuda, Hirokazu Handa

    Plant & cell physiology   62 ( 1 )   8 - 27   2021.3

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    Language：English   Publishing type：Research paper (scientific journal)  

    Bread wheat is a major crop that has long been the focus of basic and breeding research. Assembly of its genome has been difficult because of its large size and allohexaploid nature (AABBDD genome). Following the first reported assembly of the genome of the experimental strain Chinese Spring (CS), the 10+ Wheat Genomes Project was launched to produce multiple assemblies of worldwide modern cultivars. The only Asian cultivar in the project is Norin 61, a representative Japanese cultivar adapted to grow across a broad latitudinal range, mostly characterized by a wet climate and a short growing season. Here, we characterize the key aspects of its chromosome-scale genome assembly spanning 15 Gb with a raw scaffold N50 of 22 Mb. Analysis of the repetitive elements identified chromosomal regions unique to Norin 61 that encompass a tandem array of the pathogenesis-related 13 family. We report novel copy-number variations in the B homeolog of the florigen gene FT1/VRN3, pseudogenization of its D homeolog and the association of its A homeologous alleles with the spring/winter growth habit. Furthermore, the Norin 61 genome carries typical East Asian functional variants different from CS, ranging from a single nucleotide to multi-Mb scale. Examples of such variation are the Fhb1 locus, which confers Fusarium head-blight resistance, Ppd-D1a, which confers early flowering, Glu-D1f for Asian noodle quality and Rht-D1b, which introduced semi-dwarfism during the green revolution. The adoption of Norin 61 as a reference assembly for functional and evolutionary studies will enable comprehensive characterization of the underexploited Asian bread wheat diversity.

    DOI： 10.1093/pcp/pcaa152

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  • Characterization of Parthenocarpic Fruit of 'Miyazaki-wase No. 1', a Tropical Squash (Cucurbita moschata L.) Cultivar Reviewed

    Rihito Takisawa, Megumi Ogawa, Eri Maai, Kazusa Nishimura, Ryohei Nakano, Tetsuya Nakazaki

    HORTICULTURE JOURNAL   90 ( 1 )   68 - 74   2021

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    Language：English   Publishing type：Research paper (scientific journal)   Publisher：JAPAN SOC HORTICULTURAL SCI  

    Parthenocarpy is a trait in which fruit set and development are induced without fertilization, thereby contributing to labor saving in fruit production. In Cucurbita species, parthenocarpic cultivars have been reported in Cucurbita pepo, but not in Cucurbita maxima and Cucurbita moschata. In this regard, the identification of parthenocarpic cultivars and clarification of their characteristics will contribute greatly to the research and breeding of the parthenocarpic trait in Cucurbita species. In this study, we aimed to genetically screen diverse Cucurbita accessions for high parthenocarpic ability and to elucidate the characteristics of the parthenocarpic cultivars discovered by the screening. We screened 33 accessions from squash genetic resources and found that a Cucurbita moschata cultivar, `Miyazaki-wale No. 1', exhibited parthenocarpy. In order to clarify the characteristics, we examined the fruit set rate, fruit expansion, and fruit quality of `Miyazaki-wase No. 1'. In the spring and fall experiments, the fruit set rate of parthenocarpic fruit was lower than that of pollinated fruit. On the other hand, there was no significant difference in the transverse diameter and weight of parthenocarpic and pollinated fruits at harvest. These results indicated that the fruit set ability of parthenocarpic fruit is inferior to that of pollinated fruit, although the fruit expansion ability of parthenocarpic fruit was almost the same as that of pollinated fruit. In addition, we compared the composition of parthenocarpic fruit with that of pollinated fruit at harvest and after storage in the fall experiment. The results demonstrated that there was no significant difference in all the examined compositions between the parthenocarpic and pollinated fruits at harvest. On the other hand, the beta-carotene concentration of parthenocarpic fruit was significantly lower than that of pollinated fruit one month and two months after harvest. These results indicated that parthenocarpic fruit development did not affect fruit quality at harvest, but had an effect on beta-carotene metabolism during storage. We showed that 'Miyazaki-wase No.1' is a parthenocarpic cultivar and clarified its characteristics. Based on the results, progress in research and breeding of parthenocarpic cultivars in Cucurbita species is anticipated in the future.

    DOI： 10.2503/hortj.UTD-219

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  • Identification of Genetic Factors Affecting Fruit Weight in the Tomato (Solanum lycopersicum L.) Cultivar 'Micro-Tom' Reviewed

    Rihito Takisawa, Atsushi Nishida, Eri Maai, Kazusa Nishimura, Ryohei Nakano, Tetsuya Nakazaki

    HORTICULTURE JOURNAL   90 ( 2 )   209 - 214   2021

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    Language：English   Publishing type：Research paper (scientific journal)   Publisher：JAPAN SOC HORTICULTURAL SCI  

    'Micro-Tom', a dwarf tomato cultivar, has been used as a convenient model system in tomato research. Previous studies have shown that several genes are involved in the phenotype, but to date no studs has focused on the fruit weight. In this study, we tried to clarify genetic factors that regulate the fruit weight of 'Micro-Tom' using an F-2 population derived from 'Micro-Tom' and `MPK-1', a mid-size tomato cultivar. The F-2 population showed a continuous and transgressive segregation in terms of fruit weight, suggesting that the fruit weight was regulated by multiple loci. To identify these loci, quantitative trait loci (QTL) analysis was performed. Three QTLs located on chromosomes 4, 7, and 9 were found to regulate fruit weight, and were designated as qfw4.1, qfw7.1, and qfw9.1. Of these QTLs, qfw4.1 exhibited the highest logarithm of the odds score. We confirmed the effect of qfw4.1 in the F3 population and showed that it regulates fruit weight without affecting locule number. In addition, being homozygous for the Micro-Tom allele at the marker linked to qfw4.1 reduced vegetative size, suggesting that qfw4.1 regulates not only fruit weight, but also vegetative size in 'Micro-Tom'.

    DOI： 10.2503/hortj.UTD-252

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  • Diurnal changes in chloroplast positioning and photosynthetic traits of C-4 grass finger millet Reviewed

    Eri Maai, Kazusa Nishimura, Rihito Takisawa, Tetsuya Nakazaki

    PLANT PRODUCTION SCIENCE   23 ( 4 )   477 - 489   2020.10

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    Language：English   Publishing type：Research paper (scientific journal)   Publisher：TAYLOR & FRANCIS LTD  

    Mesophyll (M) chloroplasts in finger millet are known to aggregate to the bundle sheath side when leaves are constantly irradiated with extremely high-intensity light. This aggregative movement of M chloroplasts is also observed in natural environment, but whether a natural light regime is effective in inducing the response remains unclear. Abscisic acid is reported to trigger not only the aggregative movement but also stomatal closure, but photosynthetic responses accompanying the aggregative movement also remain unknown.We investigated changes in chloroplast positioning and photosynthetic traits under diurnal patterns of light, mimicking the natural light environment. M chloroplasts showed the aggregative movement with increasing light intensity whether it frequently fluctuated or not, and kept their aggregative positions in the midday. With decreasing light intensity, M chloroplasts returned to the random position in the evening. These results suggest that M chloroplasts often rearrange their intracellular positions during the daytime and that the chloroplast aggregative movement can be induced by a natural regime of light. The chloroplast aggregative movement was observed with increasing stomatal conductance, suggesting that stomatal closure is not crucial to trigger the chloroplast response.

    DOI： 10.1080/1343943X.2020.1758171

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  • Light stress-induced chloroplast movement and midday depression of photosynthesis in sorghum leaves Reviewed

    Eri Maai, Kazusa Nishimura, Rihito Takisawa, Tetsuya Nakazaki

    PLANT PRODUCTION SCIENCE   23 ( 2 )   172 - 181   2020.4

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    Language：English   Publishing type：Research paper (scientific journal)   Publisher：TAYLOR & FRANCIS LTD  

    Plants are exposed to high light intensity, high leaf temperatures and high air-to-leaf water vapor pressure deficit (ALVPD) during the day. These environmental stresses cause stomatal closure and photoinhibitory damage, leading to midday depression of photosynthesis. Chloroplast positioning is essential for the efficient operation of photosynthesis. However, chloroplast behavior before, during, and even after the midday depression of photosynthesis remains unknown. We investigated changes in the intracellular positioning of chloroplasts and photosynthetic traits under a diurnal pattern of light. Sorghum leaves were exposed to a 12-h regime of light mimicking the natural light environment, with constant leaf temperature and ALVPD. Net photosynthetic rate (P-n) showed a diurnal pattern, and midday depression in P-n was observed at 3.8 h of irradiation. Depression in P-n was attributed to stomatal limitation because the decrease in P-n was in accordance with the decrease in stomatal conductance. The maximum efficiency of photosystem II decreased with the increase in light intensity and remained low after 12 h of irradiation. Bundle sheath chloroplasts swelled after 8 h of irradiation, representing the accumulation of starch. Conversely, mesophyll chloroplasts exhibited avoidance response after 4 h of irradiation, and the avoidance position was maintained during the remainder of the daytime. These data suggest that chloroplasts are subject to light stress during and after the midday depression of photosynthesis. The intensity of natural light is excessive for most of the day and this light stress induces chloroplast avoidance response and depression of photosynthesis.

    DOI： 10.1080/1343943X.2019.1673666

    Web of Science

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  • The early flowering trait of an emmer wheat accession (Triticum turgidum L. ssp. dicoccum) is associated with the cis-element of the Vrn-A3 locus Reviewed

    K. Nishimura, R. Moriyama, K. Katsura, H. Saito, R. Takisawa, A. Kitajima, T. Nakazaki

    Theoretical and Applied Genetics   131 ( 10 )   2037 - 2053   2018.10

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MISC

  • Effects of Variety Breed Groups, Gene Sets, and Regression Methods on the Versatility and Accuracy of Genetic-based Growth Prediction Models in Soybean

    森崇, 西村和紗, 中野聡史, 小梶裕之, 元木航, 熊谷悦史, 加賀秋人, 岩田洋佳, 岩橋優, 長坂京香, 村田和樹, 木下有羽, 牧隆宏, 井上博茂, 中野龍平, 中川博視, 中崎鉄也

    育種学研究   26   2024

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  • P6-1-10 新規造成水田における初期土壌生成プロセスの解明−京都大学附属農場の事例−（6-1 水田土壌肥沃度 2023年度愛媛大会）

    保科 萌, 松岡 かおり, 岩橋 優, 西村 和紗, 中﨑 鉄也, 森塚 直樹

    日本土壌肥料学会講演要旨集   69   94 - 94   2023.9

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    Language：Japanese   Publisher：一般社団法人 日本土壌肥料学会  

    DOI： 10.20710/dohikouen.69.0_94_3

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  • Investigation of the mode of inheritance with a high-density linkage map in tetraploid blueberry

    長坂京香, 西村和紗, 元木航, 山形啓悟, 西山総一郎, 山根久代, 田尾龍太郎, 中野龍平, 中崎鉄也

    園芸学研究 別冊   22 ( 1 )   2023

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  • Identifying causal loci of the hybrid necrosis between the AuAuBBAmAm synthetic hexaploids and common wheat

    與田悠人, 野口微風子, 古村翔也, 村田和樹, 岡田萌子, 岡田萌子, 岡田萌子, 水野信之, 小林史典, 西村和紗, 井上喜博, 那須田周平, 松岡由浩, 吉田健太郎

    育種学研究   25   2023

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  • Alien chromosome fragment introgression to Triticum aestivum L. using Pairing homoeologous 2 deletion lines

    田渕雅啓, 岡田萌子, 岡田萌子, 岡田萌子, 道川麻美, 井上喜博, 西村和紗, 水野信之, 清水健太郎, 清水健太郎, 小林史典, 宅見薫雄, 吉田健太郎

    育種学研究   25   2023

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  • Development of waxy common buckwheat using NGS-TILLING

    安井康夫, FAWCETT J., 田中朋之, 西村和紗, 西村和紗, 中崎鉄也, 岩橋優, 齊藤大樹, 竹内直子, 上野まりこ, 上野まりこ, 白澤健太, 平川英樹, 大田竜也

    育種学研究   25   2023

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  • Search for genes related to flowering in soybean and construction of a developmental prediction model based on this genetic information

    森崇, 西村和紗, 中野聡史, 小梶裕之, 元木航, 熊谷悦史, 加賀秋人, 岩田洋佳, 岩橋優, 長坂京香, 村田和樹, 木下有羽, 牧隆宏, 井上博茂, 中野龍平, 中川博視, 中崎鉄也

    育種学研究   25   2023

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  • Gene Cluster CqCYP76AD1 and CqDODA1 Regulating Betalain Production in Quinoa

    久篠沙耶子, 水野信之, 西村和紗, 上野まりこ, 中崎鉄也, 小林安文, 藤田泰成, 白澤健太, 平川英樹, 安井康夫, 桂圭佑

    日本作物学会講演会要旨集   256th   2023

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  • Identification of genes associated with red pigment production in quinoa true leaves using de novo assembly and bulked segregant analysis

    Kushino Sayako, Mizuno Nobuyuki, Nishimura Kazusa, Ueno Mariko, Nakazaki Tetsuya, Kobayashi Yasufumi, Fujita Yasunari, Shirasawa Kenta, Hirakawa Hideki, Yasui Yasuo, Katsura Keisuke

    Abstracts of Meeting of the CSSJ   254   70 - 70   2022.9

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    Language：Japanese   Publisher：CROP SCIENCE SOCIETY OF JAPAN  

    DOI： 10.14829/jcsproc.254.0_70

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  • 15 新規造成水田における作土の色の時空間変動−京都大学附属農場の事例（関西支部講演会 2020年度支部講演会）

    森塚 直樹, 西村 和紗, 中﨑 鉄也

    日本土壌肥料学会講演要旨集   67   222 - 222   2021.9

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    Language：Japanese   Publisher：一般社団法人 日本土壌肥料学会  

    DOI： 10.20710/dohikouen.67.0_222_3

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  • A crop growth model based on genotypes of rice flowering-related genes

    Nishimura Kazusa, Kokaji Hiroyuki, Saito Hiroki, Yamasaki Masanori, Yoshida Hiroe, Shimizu Akifumi, Nagano Atsushi J., Nakagawa Hiroshi, Nakazaki Tetsuya

    Abstracts of Meeting of the CSSJ   251   91 - 91   2021.3

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    DOI： 10.14829/jcsproc.251.0_91

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  • Development of the rice growth and yield simulator based on gene information and crop growth model

    Yabe Shiori, Kajiya-Kanegae Hiromi, Saito Hiroki, Nakazaki Tetsuya, Aoki Naohiro, Yamasaki Masanori, Nakagawa Hiroshi, Sawada Hiroko, Yoshida Hiroe, Nishimura Kazusa, Kokaji Hiroyuki, Morita Ryutaro, Okamura Masaki, Goto Akitoshi, Ebana Kaworu

    Abstracts of Meeting of the CSSJ   251   93 - 93   2021

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    Language：Japanese   Publisher：CROP SCIENCE SOCIETY OF JAPAN  

    DOI： 10.14829/jcsproc.251.0_93

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    J-GLOBAL

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  • Heading date of a rice cultivar, Taichung 65 is altered by day length conditions in basic vegetative phase

    安部学, 小梶裕之, 齋藤大樹, 西村和紗, 清水顕史, 中川博視, 矢部志央理, 中野龍平, 間合絵里, 元木航, 永野惇, 中崎鉄也

    育種学研究   22   2020

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  • ソバにおける異型花型自家不和合性遺伝子座のゲノム解析

    大田竜也, 相井城太郎, 上野まりこ, 大澤良, 齊藤大樹, 白澤健太, 竹島亮馬, 中崎鉄也, 西村和紗, 原尚資, 平川英樹, FAWCETT J, 松井勝弘, 水野信之, 安井康夫

    育種学研究   21   2019

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Presentations

  • デュラムコムギにおける出穂期関連遺伝子の発現解析による相互作用メカニズムの解析

    藤岡 明雅, 門田 有希, 西村 和紗, 西田 英隆, 加藤 鎌司

    日本育種学会第144回講演会  2023.9.17 

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    Event date： 2023.9.16 - 2023.9.17

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  • メロンにおけるワタアブラムシ抵抗性遺伝子座周辺配列の比較解析および選抜マーカーの開発

    十河奈々, 大熊眞歩, Odirichi Nnennaya IMOH, 長井朋美, 鴫田玄太, 田中克典, 西村和紗, 清古貴, 武藤千秋, 内藤健, 門田有希, 杉山充啓, 西田英隆, 川頭洋一, 友岡憲彦, 加藤鎌司

    日本育種学会第144回講演会  2023.9.16 

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    Event date： 2023.9.16 - 2023.9.17

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  • 三倍体コムギのゲノム倍加能を活用したNAM集団構築法の開発

    西村 和紗, 中野 龍平, 中﨑 鉄也

    日本育種学会第143回講演会  2023.3.17 

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    Event date： 2023.3.16 - 2023.3.18

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  • 単為結果性カボチャ品種‘宮崎早生1号’の果実特性

    小川 萌, 滝澤理仁, 間合絵里, 西村和紗, 中野龍平, 中﨑鉄也

    近畿作物育種研究会第189回講演会  2020.12.12 

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    Event date： 2020.12.12

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  • トマトの単為結果性遺伝子pat-kが果実内の糖代謝へ及ぼす影響

    福留千映, 滝澤理仁, 間合絵里, 元木航, 西村和紗, 中野龍平, 中崎鉄也

    日本育種学会第138回講演会  2020.10 

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    Event date： 2020.10.10 - 2020.10.11

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  • イネ品種台中65号の出穂日はBVPにおける日長条件によって変化する

    安部学, 小梶裕之, 齋藤大樹, 西村和紗, 清水顕史, 中川博視, 矢部志央理, 中野龍平, 間合絵里, 元木航, 永野惇, 中﨑鉄也

    日本育種学会第138回講演会  2020.10 

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    Event date： 2020.10.10 - 2020.10.11

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  • 改良版 MIG-seq 法によるムギ類の遺伝解析の加速化 Invited

    西村和紗

    第16回中国地域育種談話会  2024.12 

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    Language：Japanese   Presentation type：Oral presentation (invited, special)  

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  • GRAS-Di を用いたアワとエノコログサ間の栽培化関連形質のQTL解析

    吉木陸駆, 渡邊いぶき, 原貴臣, 中村千里, 西村和紗, 門田有希, 福永健二

    第16回中国地域育種談話会  2024.12 

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  • パンコムギRIL 集団を利用した節水型耐乾性に寄与するQTLの探索

    日名弘貴, 石井孝佳, 西村和紗, 松岡由浩, 辻本壽, 妻鹿良亮

    第16回中国地域育種談話会  2024.12 

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  • オオムギの 4H 染色体に座乗する新規出穂期関連 QTLの絞り込みと原因遺伝子の探索

    大熊眞歩, 西村和紗, 門田有希, 加藤鎌司, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • キクタニギクstrawberry flowering 1変異体の原因遺伝子の探索および機能解析

    青木孝司郎, 夏目弘樹, 西村和紗, 谷口研至, 草場信

    第16回中国地域育種談話会  2024.12 

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  • オオムギ5H染色体に座乗する早生化効果の小さい新規出穂期関連QTLの遺伝解析

    栂井明日香, 大熊 眞歩, 阿辻佳人, 西村 和紗, 門田 有希, 加藤 鎌司, 西田 英隆

    第16回中国地域育種談話会  2024.12 

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  • オオムギ出穂期関連遺伝子が節間伸長および幼穂形成に及ぼす効果

    中田 知里, 中谷 勇, 岡拓海, 西村 和紗, 門田 有希, 加藤 鎌司, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • サツマイモ主要品種を用いた収量に関するGxE解析および光合成活性の調査

    泉谷真, 田口和憲, 石黒浩二, 中佑, 西中未央, 西村和紗, 西田英隆, 加藤鎌司, 門田有希

    第16回中国地域育種談話会  2024.12 

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  • PCL1が機能欠損したパンコムギ大規模分離集団における出穂期に関するゲノミック予測

    田村朋子, 西村和紗, 栂井明日香, 門田有希, 加藤鎌司, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • Nanopore ロングリードのアンプリコンシーケンスによるサツマイモ澱粉に低温糊化性をもたらす SSII 遺伝子の新規変異型アレルの探索

    中原貴臣, 田中勝, 泉谷真, 牛島幸一郎, 西村和紗, 西田英隆, 加藤鎌司, 門田有希

    第16回中国地域育種談話会  2024.12 

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  • 次世代シーケンスを活用したオオムギ出穂期突然変異遺伝子のマッピング

    武田尚馬, 大熊眞歩, Ajmal Mandozai, 西村和紗, 門田有希, 牛島幸一郎, 加藤鎌司, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • 遺伝子発現情報を利用した二粒系コムギが保有する雑種生育不全遺伝子のファインマッピング

    中西爽太朗, 西村和紗, 大熊眞歩, 中﨑鉄也, 加藤鎌司, 門田有希, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • Fine mapping を利用したサツマイモネコブセンチュウレース SP1抵抗性遺伝子の絞り込み

    田中沙英, 栗原未結, 田淵宏朗, 西村和紗, 西田英隆, 加藤鎌司, 門田有希

    第16回中国地域育種談話会  2024.12 

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  • CoSSA 解析を利用したサツマイモネコブセンチュウレース SP6-2への抵抗性を制御する遺伝子座の同定とその効果の検証

    土屋駿太, 栗原未結, 田淵宏朗, 西村和紗, 西田英隆, 加藤鎌司, 門田有希

    第16回中国地域育種談話会  2024.12 

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  • 3Dモデリングを用いたオオムギ匍匐性QTLの遺伝的定量解析

    吉川大智, 西村和紗, 門田有希, 加藤鎌司, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • 複数環境データを用いた野生エンマーコムギ系統 KU-195が保有する早生遺伝子の遺伝解析

    高野仁菜, 西村和紗, 張 芸瑄, 熊眞歩, 中﨑鉄也, 加藤鎌司, 門田有希, 西田英隆

    第16回中国地域育種談話会  2024.12 

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  • 植物育種学研究におけるMIG-seq法の利用と最適化 Invited

    西村和紗

    第56回種生物学シンポジウム  2024.12 

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    Language：Japanese   Presentation type：Symposium, workshop panel (nominated)  

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  • Improvement of an NGS library construction method from unpurified DNA to accelerate analysis of plant genetic resources

    Kazusa Nishimura

    IPSR International Forum on Plant Stress Sciences by/for Junior Researchers 2024  2024.12 

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  • GENETIC ANALYSIS FOR HEADING DATE OF DURUM WHEAT WITH LOSS-OF-FUNCTION IN TWO HOMOEOLOGOUS PCL1

    Kazusa Nishimura, Akimasa Fujioka, Maho Okuma, Yuki Monden, Kenji Kato, Hidetaka Nishida

    3rd International Wheat Congress  2024.9 

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  • 六倍体栽培ガキ品種群における集団構造解析および果実形状GWAS

    堀内 綾乃, 尾上 典之, 松崎 隆介, 南川 舞, 西村 和紗, 白澤 健太, 久保 康隆, 牛島 幸一郎, 赤木 剛士

    日本育種学会第146回講演会  2024.9 

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  • dpMIG-seq 法を用いた四倍体ブルーベリーにおける連鎖地図構築

    長坂 京香, 西村 和紗, 山形 啓悟, 西山 総一, 郎, 山根 久代, 中野 龍平, 中﨑 鉄也

    日本育種学会第146回講演会  2024.9 

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  • ダイコンのフロリゲン高発現能に寄与する遺伝子の同定

    元木 航, 西村 和紗, 鹿島 誠, 中﨑 鉄也, 中野 龍平, 細川 宗孝

    日本育種学会第146回講演会  2024.9 

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  • ゲノムワイドジェノタイピングのための迅速なNGSライブラリー構築法の開発と技術移転

    西村 和紗

    日本育種学会第146回講演会  2024.9 

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  • ボリビアと日本におけるキヌアの早生系統の育成に向けた取り組み

    永利 友佳理, 安井 康夫, 西村 和紗, 藤井 健一朗, 田中 ファン, 小賀田 拓也, 小林 安文, Meseret Gutema, 西原 英治, 坪 充, Alejandro Bonifacio, 藤田 泰成

    日本育種学会第146回講演会  2024.9 

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  • オオムギ5H 染色体上に見出した早生化効果の小さい新規出穂期関連 QTLのマッピング

    栂井 明日香, 阿辻 佳人, 大熊 眞歩, 西村 和紗, 門田 有希, 加藤 鎌司, 西田 英隆

    日本育種学会第146回講演会  2024.9 

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  • PCL1が機能欠損したパンコムギ大規模分離集団における出穂期変異の遺伝解析

    田村 朋子, 西村 和紗, 栂井 明日香, 門田 有希, 加藤 鎌司, 西田 英隆

    日本育種学会第146回講演会  2024.9 

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  • パンコムギRIL集団を利用した節水型耐乾性に寄与するQTLの探索

    日名 弘貴, 石井 孝佳, 西村 和紗, 松岡 由浩, 辻本 壽, 妻鹿 良亮

    日本育種学会第146回講演会  2024.9 

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  • サツマイモ主要品種の広域適応性に関するGxE解析および光合成活性の調査

    泉谷 真, 田口 和憲, 石黒 浩二, 田中 佑, 西中 未央, 西村 和紗, 西田 英隆, 加藤 鎌司, 門田 有希

    日本育種学会第146回講演会  2024.9 

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  • イスラエル由来の野生エンマーコムギの遺伝的分化と出穂期多様性の解析

    張 芸瑄, 西村 和紗, 角坂 麻衣, 村田 和樹, 田村 朋子, 岩橋 優, 元木 航, 長坂 京香, 牧 隆宏, 木下 有羽, 中野 龍平, 井上 博茂, 門田 有希, 川浦 香奈子, 森 直樹, Eviatar Nevo, 加藤 鎌司, 西田 英隆, 中﨑 鉄也

    日本育種学会第146回講演会  2024.9 

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  • キクタニギク白花粉変異体 wpo1の解析と原因遺伝子のマッピング

    秦 東, 西村 和紗, 森脇 幸太, 谷口 研至, 草場 信

    日本育種学会第146回講演会  2024.9 

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  • MAPPING OF HYBRID INCOMPATIBILITY GENE LOCATED ON CHROMOSOME 2B IN TETRAPLOID WHEAT

    Sotaro Nakanishi, Kazusa Nishimura, Maho Okuma, Tetsuya Nakazaki, Yuki Monden, Kenji Kato, Hidetaka Nishida

    3rd International Wheat Congress  2024.9 

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  • サツマイモ品種「ジェイレッド」のゲノム編集に向けた形質転換法の確立と培養条件の検討

    中村 千里, 泉谷 真, 大谷 基泰, 松井 英譲, 田淵 宏朗, 西村 和紗, 西田 英隆, 加藤 鎌司, 門田 有希

    日本育種学会第145回講演会  2024.3 

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  • サツマイモにおいて未だ発見されていないネコブセンチュウ抵抗性遺伝子の機能証明に向けた形質転換体の作出

    泉谷 真, 大谷 基泰, 中谷内 修, 田淵 宏朗, 西田 英隆, 加藤 鎌司, 西村 和紗, 門田 有希

    日本育種学会第145回講演会  2024.3 

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  • オオムギ突然変異系統のエキソーム解析による出穂期関連突然変異遺伝子の探索

    武田 尚馬, 大熊 眞歩, 伊吹 千尋, Ajmal Mandozai, 西村 和紗, 門田 有希, 加藤 鎌 司, 西田 英隆

    日本育種学会第145回講演会  2024.3 

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  • オオムギRIL集団における出穂期関連遺伝子型と出穂期不安定性の関連

    大熊 眞歩, 西村 和紗, 門田 有希, 加藤 鎌司, 西田 英隆

    日本育種学会第145回講演会  2024.3 

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  • 高密度連鎖地図を用いたオオムギ匍匐性を制御する遺伝子のマッピング

    西村 和紗, 大熊 眞歩, 福嶋 七海, 門田 有希, 西田 英隆, 加藤 鎌司

    日本育種学会第145回講演会  2024.3 

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  • サツマイモ塊根へのアントシアニン蓄積に関わる遺伝子座の同定と候補遺伝子の配列解析

    堀田 望未, 岡田 吉弘, 神崎 浩, 栗原 未結, 西村 和紗, 西田 英隆, 加藤 鎌司, 門田 有希

    日本育種学会第145回講演会  2024.3 

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  • NanoporeロングリードのWGSにより明らかとなったサツマイモ澱粉に低温糊化性をもたらす SSII遺伝子の変異型アレル

    中原 貴臣, 片岡 育哉, 志茂 暉月, 多田 健太, 田中 勝, 小林 晃, 泉谷 真, 内藤 健, 西 村 和紗, 西田 英隆, 加藤 鎌司, 門田 有希

    日本育種学会第145回講演会  2024.3 

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  • 赤米在来品種「神丹穂」の籾着色に関与する新規 QTLの同定

    水谷 円, 池田 実花, 西村 和紗, 種坂 英次, 築山 拓司

    日本育種学会第146回講演会  2024.3 

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  • ダイズにおける遺伝子情報を用いた発育予測モデルの汎用性及び精度にモデル構築に用いる品種群 , 遺伝子セットと回帰手法の違いが及ぼす影響

    森 崇, 西村 和紗, 中野 聡史, 小梶 裕之, 元木 航, 熊谷 悦史, 加賀 秋人, 岩田 洋佳, 岩橋 優, 長坂 京香, 村田 和樹, 木下 有羽, 牧 隆宏, 井上 博茂, 中野 龍平, 中川 博視, 中﨑 鉄也

    日本育種学会第145回講演会  2024.3 

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  • 六倍体サツマイモにおける GWAS・QTL mapping・k-mer ベースのバルク分離分析による線虫抵抗性遺伝子座の探索と比較解析

    栗原 未結, 田淵 宏朗, 西村 和紗, 西田 英隆, 加藤 鎌司, 門田 有希

    日本育種学会第145回講演会  2024.3 

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  • 未精製DNAを用いた迅速・簡便なMIG-seqライブラリー構築法の開発

    西村 和紗, 元木 航, 長坂 京香, 滝澤 理仁, 張 芸瑄, 森 崇, 中野 龍平, 中﨑 鉄也

    日本育種学会第144回講演会  2023.9.17 

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  • 通常経費で実現できるNGSを使った育種事業 Invited

    西村和紗

    近畿作物育種現地検討会  2023.9 

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  • トウガラシ‘タカノツメ’が有する高温期の自動着果性の遺伝解析

    山崎 彬, 武澤亜緒, 西村和紗, 長坂京香, 岩橋 優, 井上博茂, 元木 航, 中野龍平, 細川宗孝, 中﨑鉄也

    園芸学会令和５年度春季大会  2023.3.19 

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  • 四倍体コムギが保有する種間雑種生育不全に関する遺伝子の解析

    西村和紗, 中野龍平, 中﨑鉄也

    第17 回 ムギ類研究会  2022.12.17 

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  • Development of “degenerate oligonucleotide primer MIG-seq”, an improved method of MIG-seq, and its application to crop genetic analysis

    2022.9.24 

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  • 迅速、簡単なNGSライブラリー構築 作物学研究におけるMIG-seqの可能性 Invited

    西村和紗

    日本作物学会第254回講演会 若手の会企画による小集会(31)  2022.9.20 

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  • De novoアセンブリとbulked segregant 解析を用いたキヌア本葉の赤色色素生産に関わる遺伝子の同定

    久篠 沙耶子, 水野 信之, 西村 和紗, 上野 まりこ, 中崎 鉄矢, 小林 安文, 藤田 泰成, 白澤 健太, 平川 英樹, 安井 康夫, 桂 圭佑

    日本作物学会第254回講演会  2022.9.18 

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  • コムギの異質倍数性を活用した効率的遺伝解析手法の開発

    西村和紗, 中野龍平, 中﨑鉄也

    高次倍数体をどうにかする会2022夏  2022.8.26 

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  • 無核性カンキツ新品種「瑞季」の品種識別CAPSマーカーのNGSを用いた迅速な開発

    西村和紗, 中野龍平, 中﨑鉄矢

    日本育種学会第141回講演会  2022.3 

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  • 三倍体コムギを活用して三度の採種によってNAM集団を構築する手法の開発

    西村和紗, 中野龍平, 中﨑鉄也

    第16 回 ムギ類研究会  2021.12 

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  • ‘紅博桃’の新規枝変わりの第４染色体に検出された大規模なヘテロ接合性の消失

    谷口裕起, 牛島幸一郎, 河井 崇, 田村尚之, 福田文夫, 髙田大輔, 佐藤 守, 西村和紗, 間合絵里, 元木 航, 山崎 彬, 中﨑鉄也, 中野龍平

    園芸学会令和3年度秋季大会  2021.9.11 

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  • MIG-seqの作物ゲノムへの応用;コムギのハイスループットジェノタイピングはMIG-seqによって実現する

    西村和紗, 元木航, 山崎彬, 安井康夫, 滝澤理仁, 河井崇, 牛島幸一郎, 中野龍平, 中﨑鉄也

    日本育種学会第140回講演会  2021.9 

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  • トマトの単為結果性遺伝⼦pat-kによる高糖度化の機構解明に向けたメタボローム解析

    福留千映, 滝澤理仁, 草野都, 小林誠, 斎藤和季, 間合絵里, 元木航, 西村和紗, 山崎彬, 中野龍平, 中﨑鉄也

    園芸学会令和 3 年度春季大会  2021.3 

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  • 変動光環境におけるシコクビエの葉緑体配置および光合成動態

    間合絵里, 西村和紗, 滝澤理仁, 中﨑鉄也

    第251回日本作物学会講演会  2021.3 

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  • 単為結果性ニホンカボチャ‘OM1-P’の果実形成に関するオミックス解析

    小川萌, 滝澤理仁, 永野惇, 小嶋美紀子, 竹林裕美子, 榊原均, 元木航, 間合絵里, 西村和紗, 山崎彬, 中野龍平, 中﨑鉄也

    園芸学会令和 3 年度春季大会  2021.3 

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  • イネ出穂開花関連遺伝子の遺伝子型情報を活用した発育予測モデルの構築

    西村和紗, 小梶裕之, 斎藤大樹, 清水顕史, 矢部志央, 山崎将紀, 後藤明俊, 永野惇, 中川博視, 中崎鉄也

    第251回日本作物学会講演会  2021.3 

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  • 野⽣エンマーコムギにおけるVRN-A3座の変異と栽培コムギにおける分布

    ⻄村和紗, 森 直樹, 半⽥ 裕⼀, 川浦 ⾹奈⼦, 北島 宣, 中﨑 鉄也

    第139回日本育種学会講演会  2021.3 

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  • トマト品種‘Micro-Tom’の果実重を制御するQTLの同定

    西田 敦, 滝澤理仁, 間合絵里, 西村和紗, 中野龍平, 中﨑鉄也

    近畿作物育種研究会第189回講演会  2020.12.12 

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  • 同祖性を考慮したGenotyping-by-Sequencing法によるデュラムコムギの早生QTLの同定

    平尾友識, 西村和紗, 永野惇, 滝澤理仁, 間合絵里, 中野龍平, 中﨑鉄也

    日本育種学会第136回講演会  2019.9 

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  • Distribution of a Vrn-A3 allele with an insertion in the promoter region in wheat and its potential to apply for wheat breeding

    Kazusa Nishimura, Hirokazu Handa, Naoki Mori, Kanako Kawaura, Tetsuya Nakazaki

    1st International Wheat Congress  2019.9 

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  • 栽培エンマーコムギ(Triticum turgidum L. ssp. dicoccum)におけるVrn-A3ハプロタイプの地理的偏り

    西村和紗, 滝澤理仁, 鍋島朋之, 間合絵里, 中﨑鉄也

    日本育種学会第135回春季大会  2019.3 

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  • デュラムコムギが保有するPpd-A1aの早生効果を超える開花期遺伝子の探索

    平尾友識, 西村和紗, 中野龍平, 鍋島朋之, 滝澤理仁, 間合絵里, 中崎鉄也

    第13回ムギ類研究会  2018.11 

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  • 四倍体コムギ系統TN26が保有する3座の早生QTLの集積効果は不感光性Ppd-A1aの早生効果に匹敵する

    西村和紗, 平尾友識, 滝澤理仁, 鍋島朋之, 間合絵里, 中崎鉄也

    日本育種学会第134回秋季大会  2018.9 

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  • スペルトコムギ(Triticum aestivum L. ssp. spelta) 系統KT19-1 が保有する新規Vrn-A3座アレルの早生化効果

    西村和紗, 齊藤隆成, 半田裕一, 森直樹, 川浦香奈子, 北島宣, 中﨑鉄也

    日本育種学会 第133回講演会  2018.3 

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  • 六倍体コムギ系統(Triticum aestivum L.)におけるTN26型Vrn-A3早生アレルの分布.

    西村和紗, 齊藤隆成, 森直樹, 半田裕一, 北島宣, 中﨑鉄也

    第12回ムギ類研究会  2017.12 

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  • 四倍体コムギの純粋早晩性QTL qEpse3が開花まで日数におよぼす効果

    齊藤隆成, 西村和紗, 齊藤大樹, 北島宣, 中﨑鉄也

    日本育種学会 第131回講演会  2017.4 

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  • Identification of novel QTL for early flowering in a variety of “Emmer” wheat. International conference

    Nishimura Kazusa, Keisuke Katsura, Hiroki Saito, Akira Kitajima, Tetsuya Nakazaki

    13th International Wheat Genetics Symposium  2017.4 

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  • 四倍体コムギにおけるVrn-A3上流域の欠失がVrn3の発現に与える影響

    西村和紗, 齊藤隆成, 齊藤大樹, 北島宣, 中﨑鉄也

    日本育種学会 第131回講演会  2017.4 

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  • 止葉展開から出穂までの期間を短縮する四倍体コムギの純粋早晩性遺伝子

    齊藤隆成, 西村和紗, 齊藤大樹, 北島宣, 中﨑鉄也

    日本育種学会 第130回講演会  2016.9 

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  • Vrn-A3座上流域に存在する挿入配列の四倍体コムギにおける分布

    西村和紗, 桂圭佑, 齊藤大樹, 北島宣, 河原太八, 中﨑鉄也

    日本育種学会 第129回講演会  2016.3 

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  • 四倍体コムギ7A染色体に座乗する感光性QTLはPpd-A1と相互作用を示す

    西村和紗, 桂圭佑, 齊藤大樹, 北島宣, 中﨑鉄也

    日本育種学会 第128回講演会  2015.9 

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  • ・中_鉄也 (2015) 四倍体コムギ7A染色体に座乗する感光性遺伝子

    西村和紗, 桂圭佑, 齊藤大樹, 北島宣, 中﨑鉄也

    近畿作物・育種研究会第 179回例会  2015.5 

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  • 不感光性Ppd-A1アレルの早生化作用を超える四倍体コムギの早生遺伝子

    西村和紗, 桂圭佑, 齊藤大樹, 北島宣, 中﨑鉄也

    日本育種学会 第126回講演会  2014.9 

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  • 四倍体コムギにおける出穂開花関連遺伝子の探索

    西村和紗, 桂圭佑, 齊藤大樹, 北島宣, 河原太八, 中﨑鉄也

    近畿作物・育種研究会 第177回例会  2014.7 

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  • 簡単、安価な新規多型検出法“dpMIG-seq”の多様な作物の遺伝解析への応⽤

    西村和紗, 滝澤理仁, 中野龍平, 中﨑鉄也

    近畿作物・育種研究会 第193回例会講演 

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  • オオムギ出穂期突然変異体のエキソーム解析による原因遺伝子の探索及び遺伝解析

    大熊 眞歩, 西村 和紗, 門田 有希, 加藤 鎌司, 西田 英隆

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Awards

  • 第144回講演会日本育種学会優秀発表賞

    2023.9   日本育種学会   未精製DNAを用いた迅速・簡便なMIG-seqライブラリー構築法の開発

    西村 和紗, 元木 航, 長坂 京香, 滝澤 理仁, 張 芸瑄, 森 崇, 中野 龍平, 中﨑 鉄也

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  • 第12回ムギ類研究会若手ポスター賞,

    2017.12   ムギ類研究会   六倍体コムギ系統(Triticum aestivum L.)におけるTN26型Vrn-A3早生アレルの分布

    西村和紗, 齊藤隆成, 森直樹, 半田裕一, 北島宣, 中﨑鉄也

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Research Projects

  • 減数分裂時乗換えメカニズムを利用した育種素材開発のための基盤研究

    Grant number：24K01732  2024.04 - 2029.03

    日本学術振興会  科学研究費助成事業  基盤研究(B)

    牛島 智一, 奥本 裕, 吉川 貴徳, 西村 和紗

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    Grant amount：\18330000 （ Direct expense: \14100000 、 Indirect expense：\4230000 ）

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  • キク属モデル系統と種間交雑を基軸としたキク属重要形質の分子遺伝学的解剖

    Grant number：24H00513  2024.04 - 2029.03

    日本学術振興会  科学研究費助成事業  基盤研究(A)

    草場 信, 樋口 洋平, 山谷 浩史, 中野 道治, 豊倉 浩一, 西村 和紗

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    Grant amount：\47450000 （ Direct expense: \36500000 、 Indirect expense：\10950000 ）

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  • サトイモの交雑育種技術の開発

    Grant number：24K01751  2024.04 - 2028.03

    日本学術振興会  科学研究費助成事業  基盤研究(B)

    西島 隆明, 西村 和紗

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    Grant amount：\18460000 （ Direct expense: \14200000 、 Indirect expense：\4260000 ）

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  • Revealing the domestication process of southern highland-type quinoa in the Bolivian Andes

    Grant number：23KK0113  2023.09 - 2026.03

    Japan Society for the Promotion of Science  Grants-in-Aid for Scientific Research  Fund for the Promotion of Joint International Research (International Collaborative Research)

    安井 康夫, 藤田 泰成, 桂 圭佑, 西村 和紗

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    Grant amount：\20670000 （ Direct expense: \15900000 、 Indirect expense：\4770000 ）

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  • 未利用遺伝資源と数理モデリングの活用によるコムギ出穂期の自在制御法の開発

    Grant number：23K13929  2023.04 - 2026.03

    日本学術振興会  科学研究費助成事業  若手研究

    西村 和紗

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    Grant amount：\4680000 （ Direct expense: \3600000 、 Indirect expense：\1080000 ）

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  • Construction of the peach pan-genome and its application to the identification of genes that control the major traits of peach

    Grant number：22H00368  2022.04 - 2027.03

    Japan Society for the Promotion of Science  Grants-in-Aid for Scientific Research  Grant-in-Aid for Scientific Research (A)

    中野 龍平, 牛島 幸一郎, 山本 幹博, 福田 文夫, 西村 和紗, 高田 大輔, 鵜木 悠治郎, 森本 拓也, 小田 賢司

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    Grant amount：\41860000 （ Direct expense: \32200000 、 Indirect expense：\9660000 ）

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  • Rebuilding of origin and classification system in citrus - Analysis of Tanaka Tyozaburo's citrus dried leaf specimens and his research notes -l

    Grant number：20H02980  2020.04 - 2023.03

    Japan Society for the Promotion of Science  Grants-in-Aid for Scientific Research  Grant-in-Aid for Scientific Research (B)

    北島 宣, 山本 雅史, 伊藤 謙, 深尾 葉子, 中村 彰宏, 田中 圭子, 中野 道治, 西村 和紗, 福田 智子, 清水 徳朗

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    Grant amount：\17420000 （ Direct expense: \13400000 、 Indirect expense：\4020000 ）

    東アジアの在来カンキツのDNA解析では、359個体について131のSSRマーカーについての調査が終了し、これまでほとんど研究が行われていなかったライム、リモニア、イーチャンパペダ、カシーパペダ、シキキツについて、その分布や類縁関係について考察することができた。また、田中の分類はゲノム分析においてそれらの密接な類縁関係が示されており、新たな分類体系を構築する際に、田中の分類は重要な基盤になることが示唆された。一方、田中が作製した標本数の経年的変化と国立台湾大学における田中の著作の調査により、田中のカンキツ分類研究の概要を把握することができた。また、和歌山の橘本神社に開設されたカンキツ博物館である「常世館」に保存されている橘本神社所有の田中資料の調査により、その文化的価値を広く一般にアピールし、世界農業遺産認定に向けた取り組みを行った。これらの成果は、2022年3月21日の園芸学会春季大会テーマセッションにおいて口頭発表した。
    田中のスケッチブックは11冊、940ページあり、各ページにカンキツ種のスケッチと手書きの英文によって説明文が記述されている。この手書き英文の活字化を行うとともに、英文の和訳を行い、現在、４冊目の172ページ分まで進捗している。国内の在来ユズの調査では、京都、兵庫、福井、石川の日本海沿岸地域とユズの主要産地である高知の古木調査を行い、48個体を調査して推定樹齢100年以上の４個体を発見した。そのうち、高知県北川村には樹齢300年といわれている古木が存在した。クローンであるユズの多型マーカー解析では、ddRAD-seq法に基づき100種類のCAPsマーカー候補を作成した。これらのマーカーについて、再現性を確認中である。一方、古文におけるユズ記載の調査では、平安時代に京都にユズが存在しており、貴族の酒宴の席での話や室町時代の料理書などに記載されてた。

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  • 異質倍数性を逆手に取る:コムギNAM集団の効率的作出による有用遺伝子の網羅的探索

    Grant number：20K15502  2020.04 - 2023.03

    日本学術振興会  科学研究費助成事業  若手研究

    西村 和紗

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    Grant amount：\4290000 （ Direct expense: \3300000 、 Indirect expense：\990000 ）

    令和3年度の春に19系統の四倍体コムギとLangdonとのF1個体を種子親、タルホコムギ系統KU-2098を花粉親として交配を行った。8328小花を交配した結果、1594粒の三倍体種子を得ることができた。四倍体コムギの系統間にはタルホコムギとの交配の成功率に差が認められることが知られているが、本研究では、どの組み合わせにおいても三倍体種子を得ることができた。一方で、これらの種子を発芽させた結果、1594粒中、503粒しか発芽しなかった。そのため、当初はファイトトロン内で三倍体を育てて合成六倍体を得ることを計画していたが、できる限り分げつ数を増やして、各三倍体個体から確実に合成六倍体を得るために、ハウス内に三倍体を移植した。三倍体個体は健全に生育しているが、一部の個体に異常分げつ矮性と見られる雑種生育不全が認められた。今後は、これらの雑種生育不全に関わる遺伝子座およびその原因遺伝子の同定も、NAM集団の作出と並行して試みる予定である。
    また、ゲノム中の限られた領域を効率良く次世代シーケンサーでシーケンスする手法の一つである、MIG-seq(Suyama and Matsuki 2015)はddRAD-seqなどの手法と比較して得られる多型数が少ないと報告されているが、コムギにおいては比較的低コストで、QTL解析やアソシーエーション解析に十分な多型が得られることを令和2年度に明らかにした。令和3年度には、この成果に加えて、MIG-seqでは1stPCRに用いるDNAの濃度を揃えずとも欠損データの少ないジェノタイピングができることを明らかにした。これらの成果について論文に取りまとめ、DNA research誌に投稿し、審査中である。

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